Solubilization of insoluble inorganic phosphate by <i>Burkholderia cepacia</i> DA23 isolated from cultivated soil

Song, Ok-Ryul,Lee, Seung-Jin,Lee, Yong-Seok,Lee, Sang-Cheol,Kim, Keun-Ki,Choi, Yong-Lark Sociedade Brasileira de Microbiologia 2008 Brazilian journal of microbiology Vol.39 No.1

<P>A mineral phosphate solubilizing bacterium, <I>Burkholderia cepacia</I> DA23 has been isolated from cultivated soils. Phosphate-solubilizing activities of the strain against three types of insoluble phosphate were quantitatively determined. When 3% of glucose concentration was used for carbon source, the strain had a marked mineral phosphate-solubilizing activity. Mineral phosphate solubilization was directly related to the pH drop by the strain. Analysis of the culture medium by high pressure liquid chromatography identified gluconic acid as the main organic acid released by <I>Burkholderia cepacia</I> DA23. Gluconic acid production was apparently the result of the glucose dehydrogenase activity and glucose dehydrogenase was affected by phosphate regulation.</P>

Isolation and Phosphate-Solubilizing Characteristics of PSM, Aeromonas hydrophila DA33.

Ok Ryul Song,Seung Jin Lee,Mi Wha Lee,Si Lim Choi,Soo Yeol Chung,Young Gyun Lee,Yong Lark Choi 한국생명과학회 2001 Journal of Life Science Vol.11 No.2

Isolation and Cultural Characteristics of Phosphate-Solubilizing Bacteria

Song,Ok Ryul,Kim,Se Hoon,Lee,Seung Jin,Choi,Si Rim,Chung,Soo Yeol,Choi,Yong Lark 한국생명과학회 2001 한국생명과학회 학술발표회 Vol.31 No.-

Many microorganisms isolated from soils can solubilize inorganic phosphorus compounds such as rock phosphate. Inorganic P solubilization by microbes has been attributed to processes involving acidification, chelation and exchange reactions in the growth environment. In order to develop the inoculating biofertilizer phosphate- solubilizing bacteria were isolated from cultivated soils using calcium phosphate medium and identified to Aeromonas hydophila DA33, DA57, Pseudomonas cepatia DA71 based on the physiological and biochemical characteristics. These strains showed solubilization in some phosphatic compounds such as hydroxyapatite, tri-calcium phosphate, and aluminium phosphate. The optimum temperature and initial pH to solubilize inorganic phosphate were tested. In the optimum condition phosphate solubilizing activities of isolated strains were quantitatively determined. One of the isolated strain, Aeromonas hydrophila DA57 has a cryptic plasmid.

Isolation and Phosphate-Solubilizing Characteristics of PSM, Aeromonas hydrophila DA33

Song, Ok-Ryul,Lee, Seung-Jin,Lee, Mi-Wha,Choi, Si-Lim,Chung, Soo-Yeol,Lee, Young-Gyun,Choi, Yong-Lark Korean Society of Life Science 2001 Journal of Life Science Vol.11 No.2

bacterium having high abilities to solubilize in-organic phosphate was isolated from cultivated soils. The strain was identified as Aeromonas hydrophila DA33, based on the physiological and biochemical properties. The optimum temperature and initial pH to solubilize insoluble phosphate in sucrose minimal medium were 3$0^{\circ}C$ and pH 5.0, respectively. In these conditions, phosphate-solubilizing activities of the strain against two types of insoluble phosphate were quantitatively determined. When glucose was used for carborn source, the strain had a marked mineral phospahte solubilizing activity. Inorganic phospahte solubilization was directly related to the pH drop by the strain. Analysis of the culture medium confirmed the production of gluconic acid as the main organic acid released by Aeromonas hydrophila DA33.

Cultural Characteristics of a Phosphate-solubilizing bacterium , Pseudomonas cepacia DA23

Song,Ok Ryul,Lee,Mi Hwa,Lee,Seung Jin,Chung,Soo Yeol,Choi,Yong Lark 한국생명과학회 2001 한국생명과학회 학술발표회 Vol.33 No.-

A bacterium having strong ability to solubilize inorganic phosphate was isolated from cultured soils for salts accumulation and superfluity treatment of phosphate, using sucrose minimal agar-tricalcium phosphate medium. The strain was identified to Pseudomonas cepacia DA23, based on the physiological and biochemical properties. The optimum temperature and initial pH to solubilize insoluble phosphate in sucrose minimal medium were 26℃ and pH 5.0, respectively. In these conditions, phosphate solubilizing activites of the strain against two types of insoluble phosphate like tricalcium phosphate, hydroxy apatite, were quantitiatively determined. When glucose was used for carborn source, the strain had a marked mineral phosphate solubilizing activity. Inorganic phosphate solubilization was directly related to the pH drop by the strain. Analysis of the culture medium confirmed the production of gluconic acid as the main organic acid released by Pseudomonsa cepacia DA23.

Antileishmanial High-Throughput Drug Screening Reveals Drug Candidates with New Scaffolds

Siqueira-Neto, Jair L.,Song, Ok-Ryul,Oh, Hyunrim,Sohn, Jeong-Hun,Yang, Gyongseon,Nam, Jiyoun,Jang, Jiyeon,Cechetto, Jonathan,Lee, Chang Bok,Moon, Seunghyun,Genovesio, Auguste,Chatelain, Eric,Christoph Public Library of Science 2010 PLoS neglected tropical diseases Vol.4 No.5

<▼1><P>Drugs currently available for leishmaniasis treatment often show parasite resistance, highly toxic side effects and prohibitive costs commonly incompatible with patients from the tropical endemic countries. In this sense, there is an urgent need for new drugs as a treatment solution for this neglected disease. Here we show the development and implementation of an automated high-throughput viability screening assay for the discovery of new drugs against <I>Leishmania</I>. Assay validation was done with <I>Leishmania</I> promastigote forms, including the screening of 4,000 compounds with known pharmacological properties. In an attempt to find new compounds with leishmanicidal properties, 26,500 structurally diverse chemical compounds were screened. A cut-off of 70% growth inhibition in the primary screening led to the identification of 567 active compounds. Cellular toxicity and selectivity were responsible for the exclusion of 78% of the pre-selected compounds. The activity of the remaining 124 compounds was confirmed against the intramacrophagic amastigote form of the parasite. <I>In vitro</I> microsomal stability and cytochrome P450 (CYP) inhibition of the two most active compounds from this screening effort were assessed to obtain preliminary information on their metabolism in the host. The HTS approach employed here resulted in the discovery of two new antileishmanial compounds, bringing promising candidates to the leishmaniasis drug discovery pipeline.</P></▼1><▼2><P><B>Author Summary</B></P><P>Every year, more than 2 million people worldwide suffer from leishmaniasis, a neglected tropical disease present in 88 countries. The disease is caused by the single-celled protozoan parasite species of the genus <I>Leishmania</I>, which is transmitted to humans by the bite of the sandfly. The disease manifests itself in a broad range of symptoms, and its most virulent form, named visceral leishmaniasis, is lethal if not treated. Most of the few available treatments for leishmaniasis were developed decades ago and are often toxic, sometimes even leading to the patient's death. Furthermore, the parasite is developing resistance to available drugs, making the discovery and development of new antileishmanials an urgent need. To tackle this problem, the authors of this study employed the use of high-throughput technologies to screen a large library of small, synthetic molecules for their ability to interfere with the viability of <I>Leishmania</I> parasites. This study resulted in the discovery of two novel compounds with leishmanicidal properties and promising drug-like properties, bringing new candidates to the leishmaniasis drug discovery pipeline.</P></▼2>

Validation of QF-PCR for Rapid Prenatal Diagnosis of Common Chromosomal Aneuploidies in Korea

Sung-Hee Han,Jae-Song Ryu,Jeong-Wook An,Ok-Kyoung Park,Hye-Ryoung Yoon,Young-Ho Yang,Kyoung-Ryul Lee 대한의학유전학회 2010 대한의학유전학회지 Vol.7 No.1

목적 : QF-PCR법은 흔한 염색체 이수성에 대한 빠른 산전 진단을 가능하게 하는데, 낮은 가격, 빠른 속도, 그리고 자동화가 가능하여 한꺼번에 많은 검체에 대해 적용할 수 있다는 장점들이 있다. 하지만 아직까지 국내에서 QF-PCR법은 산전 염색체 이수성 선별검사로 주로 사용되는 방법이 아니다. 본 연구에서는 한국인에서 빠른 산전 진단을 목적으로 시행하는 짧은 염기서열 반복(short tandem repeats, STR) 표지자를 이용한 QF-PCR법의 수행능을 검증하고자 한다. 대상 및 방법 : 2007년에서 2009년까지 산전 염색체 이수성 선별을 목적으로 의뢰된 847개의 양수 검체에 대해 QF-PCR법을 시행하였는데 13번, 18번, 21번, X, Y염색체에 위치한 총 20개의 STR 표지자로 구성된 Elucigene kit (Gen-Probe, Abingdon, UK)를 사용하였다. 총 847개의 양수 검체에 대한QF-PCR 결과는 염색체 검사 결과와 비교하였고, STR 표지자의 정보력을 평가하기 위해서 각 표지자에 대해 이형접합체 지수(heterozygosity index)를 구하였다. 결과 : 총 847개 양수 검체에 대한 QF-PCR 검사 결과 19개(2.2%, 19/847)에서 13, 18, 21번 염색체와 X, Y염색체의 수적 이상이 관찰되었는데 염색체 검사에서도 동일한 결과를 보여100% 양성 예측율을 나타냈다. 하지만 염색체 검사 결과 7개(0.8%, 7/847) 검체에서 5개의 균형전좌와 2개의 불균형 염색체 이상이 관찰되었으나 QF-PCR에서는 진단되지 않았다. STR 표지자의 평균 이형접합체 지수(he-terozygosity index)는 0.76으로 서양인에서 보고된 0.8에 비해 다소 낮았다. 본 연구에서 D13S634표지자의 미세수준의 중복(submicroscopic duplication)이 1.4% (12/847)에서 관찰되었는데 이는 한국인에서 특징적인 소견으로 생각된다. 결론 : 본 기관에서는 산전 염색체 이수성 선별을 위한 QF-PCR법을 검증하였으며 효율적이고 신뢰할 수 있는 방법임이 입증되었다. 하지만 QF-PCR결과를 해석하기 위한 지침을 만들기 위해서 검사실마다 독립적으로 각각의 STR표지자에 대한 검증이 필요하며, 또한 QF-PCR법을 통상적인 염색체 검사 업무흐름에 통합하는 것이 필요하다고 사료된다. Purpose: Quantitative fluorescent polymerase chain reaction (QF-PCR) allows for the rapid prenatal diagnosis of common aneuploidies. The main advantages of this assay are its low cost, speed, and automation, allowing for large-scale application. However, despite these advantages, it is not a routine method for prenatal aneuploidy screening in Korea. Our objective in the present study was to validate the performance of QF-PCR using short tandem repeat (STR) markers in a Korean population as a means for rapid prenatal diagnosis. Material and Methods: A QF-PCR assay using an Elucigene kit (Gen-Probe, Abingdon, UK), containing 20 STR markers located on chromosomes 13, 18, 21, X and Y, was performed on 847 amniotic fluid (AF) samples for prenatal aneuploidy screening referred for prenatal aneuploidy screening from 2007 to 2009. The results were then compared to those obtained using conventional cytogenetic analysis. To evaluate the informativity of STR markers, the heterozygosity index of each marker was determined in all the samples. Results: Three autosomes (13, 18, and 21) and X and Y chromosome aneuploidies were detected in 19 cases (2.2%, 19/847) after QF-PCR analysis of the 847 AF samples. Their results are identical to those of conventional cytogenetic analysis, with 100% positive predictive value. However, after cytogenetic analysis, 7 cases (0.8%, 7/847) were found to have 5 balanced and 2 unbalanced chromosomal abnormalities that were not detected by QF-PCR. The STR markers had a slightly low heterozygosity index (average: 0.76) compared to those reported in Caucasians (average: 0.80). Submicroscopic duplication of D13S634 marker, which might be a unique finding in Koreans, was detected in 1.4% (12/847) of the samples in the present study. Conclusion: A QF-PCR assay for prenatal aneuploidy screening was validated in our institution and proved to be efficient and reliable. However, we suggest that each laboratory must perform an independent validation test for each STR marker in order to develop interpretation guidelines of the results and must integrate QF-PCR into the routine cytogenetic laboratory workflow.

Improvement of anti-plasma etching property by the formation of dense coating layer containing yttrium via laser-induced hydrothermal one-step synthesis

Jaeho Park,Sangmin Song,Jaehong Lee,Kyungwoo Lee,Yu-Chan Kim,Myoung-Ryul Ok,Hyung-Seop Han,Jeong-Yun Sun,Hojeong Jeon 한국생산제조학회 2022 한국생산제조시스템학회 학술발표대회 논문집 Vol.2022 No.5

Validation of QF-PCR for Rapid Prenatal Diagnosis of Common Chromosomal Aneuploidies in Korea

Han, Sung-Hee,Ryu, Jae-Song,An, Jeong-Wook,Park, Ok-Kyoung,Yoon, Hye-Ryoung,Yang, Young-Ho,Lee, Kyoung-Ryul Korean Society of Medical Genetics and Genomics 2010 대한의학유전학회지 Vol.7 No.1

목 적: QF-PCR법은 흔한 염색체 이수성에 대한 빠른 산전 진단을 가능하게 하는데, 낮은 가격, 빠른 속도, 그리고 자동화가 가능하여 한꺼번에 많은 검체에 대해 적용할 수 있다는 장점들이 있다. 하지만 아직까지 국내에서 QF-PCR법은 산전 염색체 이수성 선별검사로 주로 사용되는 방법이 아니다. 본 연구에서는 한국인에서 빠른 산전 진단을 목적으로 시행하는 짧은 염기서열 반복(short tandem repeats, STR) 표지자를 이용한 QF-PCR법의 수행능을 검증하고자 한다. 대상 및 방법: 2007년에서 2009년까지 산전 염색체 이수성 선별을 목적으로 의뢰된 847개의 양수 검체에 대해 QF-PCR법을 시행하였는데 13번, 18번, 21번, X, Y염색체에 위치한 총 20개의 STR 표지자로 구성된 Elucigene kit (Gen-Probe, Abingdon, UK)를 사용하였다. 총 847개의 양수 검체에 대한QF-PCR 결과는 염색체 검사 결과와 비교하였고, STR 표지자의 정보력을 평가하기 위해서 각 표지자에 대해 이형접합체 지수(heterozygosity index)를 구하였다. 결 과: 총 847개 양수 검체에 대한 QF-PCR 검사 결과 19개(2.2%, 19/847)에서 13, 18, 21번 염색체와 X, Y염색체의 수적 이상이 관찰되었는데 염색체 검사에서도 동일한 결과를 보여100% 양성 예측율을 나타냈다. 하지만 염색체 검사 결과 7개(0.8%, 7/847) 검체에서 5개의 균형전좌와 2개의 불균형 염색체 이상이 관찰되었으나 QF-PCR에서는 진단되지 않았다. STR 표지자의 평균 이형접합체 지수(he-terozygosity index)는 0.76으로 서양인에서 보고된 0.8에 비해 다소 낮았다. 본 연구에서 D13S634표지자의 미세수준의 중복(submicroscopic duplication)이 1.4% (12/847)에서 관찰되었는데 이는 한국인에서 특징적인 소견으로 생각된다. 결 론: 본 기관에서는 산전 염색체 이수성 선별을 위한 QF-PCR법을 검증하였으며 효율적이고 신뢰할 수 있는 방법임이 입증되었다. 하지만 QF-PCR결과를 해석하기 위한 지침을 만들기 위해서 검사실마다 독립적으로 각각의 STR표지자에 대한 검증이 필요하며, 또한 QF-PCR법을 통상적인 염색체 검사 업무흐름에 통합하는 것이 필요하다고 사료된다. Purpose: Quantitative fluorescent polymerase chain reaction (QF-PCR) allows for the rapid prenatal diagnosis of common aneuploidies. The main advantages of this assay are its low cost, speed, and automation, allowing for large-scale application. However, despite these advantages, it is not a routine method for prenatal aneuploidy screening in Korea. Our objective in the present study was to validate the performance of QF-PCR using short tandem repeat (STR) markers in a Korean population as a means for rapid prenatal diagnosis. Material and Methods: A QF-PCR assay using an Elucigene kit (Gen-Probe, Abingdon, UK), containing 20 STR markers located on chromosomes 13, 18, 21, X and Y, was performed on 847 amniotic fluid (AF) samples for prenatal aneuploidy screening referred for prenatal aneuploidy screening from 2007 to 2009. The results were then compared to those obtained using conventional cytogenetic analysis. To evaluate the informativity of STR markers, the heterozygosity index of each marker was determined in all the samples. Results: Three autosomes (13, 18, and 21) and X and Y chromosome aneuploidies were detected in 19 cases (2.2%, 19/847) after QF-PCR analysis of the 847 AF samples. Their results are identical to those of conventional cytogenetic analysis, with 100% positive predictive value. However, after cytogenetic analysis, 7 cases (0.8%, 7/847) were found to have 5 balanced and 2 unbalanced chromosomal abnormalities that were not detected by QF-PCR. The STR markers had a slightly low heterozygosity index (average: 0.76) compared to those reported in Caucasians (average: 0.80). Submicroscopic duplication of D13S634 marker, which might be a unique finding in Koreans, was detected in 1.4% (12/847) of the samples in the present study. Conclusion: A QF-PCR assay for prenatal aneuploidy screening was validated in our institution and proved to be efficient and reliable. However, we suggest that each laboratory must perform an independent validation test for each STR marker in order to develop interpretation guidelines of the results and must integrate QF-PCR into the routine cytogenetic laboratory workflow.

Antifungal activity and characterization of cell-wall degrading enzyme from Burkholderia sp. DA-71

Youn-Ju Jung,Chin-Woo Lee,Ok-Ryul Song,Ju-Soon Yoo,Woo-Hong Ju,Soo-Yeol Chung,Yong-Lark Choi 한국생명과학회 2003 한국생명과학회 심포지움 Vol.39 No.-